instalar - Instalación de SciPy/Python en Ubuntu

pip install matplotlib

Question

Actualmente estoy siguiendo el tutorial Instalando SciPy Stack para instalar SciPy en Ubuntu 12.04 (Precise Pangolin) (No puedo usar apt-get install porque necesito una versión reciente).

Sin embargo, recibo errores cuando hago los siguientes comandos:

python setup.py build
sudo python setup.py install --prefix=/usr/local   # Installs to /usr/local

python setup.py build

michael@michael-laptop-ubuntu:~/Downloads/scipy-0.11.0rc1$ python setup.py buildRunning from scipy source directory.
blas_opt_info:
blas_mkl_info:
  libraries mkl,vml,guide not found in /usr/local/lib
  libraries mkl,vml,guide not found in /usr/lib
  libraries mkl,vml,guide not found in /usr/lib/i386-linux-gnu
  NOT AVAILABLE

atlas_blas_threads_info:
Setting PTATLAS=ATLAS
  libraries ptf77blas,ptcblas,atlas not found in /usr/local/lib
  libraries ptf77blas,ptcblas,atlas not found in /usr/lib/sse2
  libraries ptf77blas,ptcblas,atlas not found in /usr/lib
  libraries ptf77blas,ptcblas,atlas not found in /usr/lib/i386-linux-gnu/sse2
  libraries ptf77blas,ptcblas,atlas not found in /usr/lib/i386-linux-gnu
  NOT AVAILABLE

atlas_blas_info:
  libraries f77blas,cblas,atlas not found in /usr/local/lib
  libraries f77blas,cblas,atlas not found in /usr/lib/sse2
  libraries f77blas,cblas,atlas not found in /usr/lib
  libraries f77blas,cblas,atlas not found in /usr/lib/i386-linux-gnu/sse2
  libraries f77blas,cblas,atlas not found in /usr/lib/i386-linux-gnu
  NOT AVAILABLE

/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py:1423: UserWarning: 
    Atlas (http://math-atlas.sourceforge.net/) libraries not found.
    Directories to search for the libraries can be specified in the
    numpy/distutils/site.cfg file (section [atlas]) or by setting
    the ATLAS environment variable.
  warnings.warn(AtlasNotFoundError.__doc__)
blas_info:
  libraries blas not found in /usr/local/lib
  libraries blas not found in /usr/lib
  libraries blas not found in /usr/lib/i386-linux-gnu
  NOT AVAILABLE

/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py:1432: UserWarning: 
    Blas (http://www.netlib.org/blas/) libraries not found.
    Directories to search for the libraries can be specified in the
    numpy/distutils/site.cfg file (section [blas]) or by setting
    the BLAS environment variable.
  warnings.warn(BlasNotFoundError.__doc__)
blas_src_info:
  NOT AVAILABLE

/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py:1435: UserWarning: 
    Blas (http://www.netlib.org/blas/) sources not found.
    Directories to search for the sources can be specified in the
    numpy/distutils/site.cfg file (section [blas_src]) or by setting
    the BLAS_SRC environment variable.
  warnings.warn(BlasSrcNotFoundError.__doc__)
Traceback (most recent call last):
  File "setup.py", line 208, in <module>
    setup_package()
  File "setup.py", line 199, in setup_package
    configuration=configuration )
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/core.py", line 152, in setup
    config = configuration()
  File "setup.py", line 136, in configuration
    config.add_subpackage(''scipy'')
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 1002, in add_subpackage
    caller_level = 2)
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 971, in get_subpackage
    caller_level = caller_level + 1)
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 908, in _get_configuration_from_setup_py
    config = setup_module.configuration(*args)
  File "scipy/setup.py", line 8, in configuration
    config.add_subpackage(''integrate'')
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 1002, in add_subpackage
    caller_level = 2)
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 971, in get_subpackage
    caller_level = caller_level + 1)
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 908, in _get_configuration_from_setup_py
    config = setup_module.configuration(*args)
  File "scipy/integrate/setup.py", line 10, in configuration
    blas_opt = get_info(''blas_opt'',notfound_action=2)
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py", line 320, in get_info
    return cl().get_info(notfound_action)
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py", line 471, in get_info
    raise self.notfounderror(self.notfounderror.__doc__)
numpy.distutils.system_info.BlasNotFoundError: 
    Blas (http://www.netlib.org/blas/) libraries not found.
    Directories to search for the libraries can be specified in the
    numpy/distutils/site.cfg file (section [blas]) or by setting
    the BLAS environment variable.
Error in sys.excepthook:
Traceback (most recent call last):
  File "/usr/lib/python2.7/dist-packages/apport_python_hook.py", line 64, in apport_excepthook
    from apport.fileutils import likely_packaged, get_recent_crashes
  File "/usr/lib/python2.7/dist-packages/apport/__init__.py", line 1, in <module>
    from apport.report import Report
  File "/usr/lib/python2.7/dist-packages/apport/report.py", line 18, in <module>
    import problem_report
  File "/usr/lib/python2.7/dist-packages/problem_report.py", line 14, in <module>
    import zlib, base64, time, sys, gzip, struct, os
  File "/usr/lib/python2.7/gzip.py", line 10, in <module>
    import io
  File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/io/__init__.py", line 83, in <module>
    from matlab import loadmat, savemat, byteordercodes
  File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/io/matlab/__init__.py", line 11, in <module>
    from mio import loadmat, savemat
  File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/io/matlab/mio.py", line 15, in <module>
    from mio4 import MatFile4Reader, MatFile4Writer
  File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/io/matlab/mio4.py", line 9, in <module>
    import scipy.sparse
  File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/sparse/__init__.py", line 180, in <module>
    from csr import *
  File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/sparse/csr.py", line 12, in <module>
    from sparsetools import csr_tocsc, csr_tobsr, csr_count_blocks, /
  File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/sparse/sparsetools/__init__.py", line 4, in <module>
    from csr import *
  File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/sparse/sparsetools/csr.py", line 25, in <module>
    _csr = swig_import_helper()
  File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/sparse/sparsetools/csr.py", line 17, in swig_import_helper
    import _csr
ImportError: No module named _csr

Original exception was:
Traceback (most recent call last):
  File "setup.py", line 208, in <module>
    setup_package()
  File "setup.py", line 199, in setup_package
    configuration=configuration )
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/core.py", line 152, in setup
    config = configuration()
  File "setup.py", line 136, in configuration
    config.add_subpackage(''scipy'')
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 1002, in add_subpackage
    caller_level = 2)
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 971, in get_subpackage
    caller_level = caller_level + 1)
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 908, in _get_configuration_from_setup_py
    config = setup_module.configuration(*args)
  File "scipy/setup.py", line 8, in configuration
    config.add_subpackage(''integrate'')
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 1002, in add_subpackage
    caller_level = 2)
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 971, in get_subpackage
    caller_level = caller_level + 1)
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 908, in _get_configuration_from_setup_py
    config = setup_module.configuration(*args)
  File "scipy/integrate/setup.py", line 10, in configuration
    blas_opt = get_info(''blas_opt'',notfound_action=2)
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py", line 320, in get_info
    return cl().get_info(notfound_action)
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py", line 471, in get_info
    raise self.notfounderror(self.notfounderror.__doc__)
numpy.distutils.system_info.BlasNotFoundError: 
    Blas (http://www.netlib.org/blas/) libraries not found.
    Directories to search for the libraries can be specified in the
    numpy/distutils/site.cfg file (section [blas]) or by setting
    the BLAS environment variable.

sudo python setup.py install --prefix = / usr / local # instala a / usr / local

michael@michael-laptop-ubuntu:~/Downloads/scipy-0.11.0rc1$ sudo python setup.py install --prefix=/usr/local
[sudo] password for michael: 
Running from scipy source directory.
blas_opt_info:
blas_mkl_info:
  libraries mkl,vml,guide not found in /usr/local/lib
  libraries mkl,vml,guide not found in /usr/lib
  libraries mkl,vml,guide not found in /usr/lib/i386-linux-gnu
  NOT AVAILABLE

atlas_blas_threads_info:
Setting PTATLAS=ATLAS
  libraries ptf77blas,ptcblas,atlas not found in /usr/local/lib
  libraries ptf77blas,ptcblas,atlas not found in /usr/lib/sse2
  libraries ptf77blas,ptcblas,atlas not found in /usr/lib
  libraries ptf77blas,ptcblas,atlas not found in /usr/lib/i386-linux-gnu/sse2
  libraries ptf77blas,ptcblas,atlas not found in /usr/lib/i386-linux-gnu
  NOT AVAILABLE

atlas_blas_info:
  libraries f77blas,cblas,atlas not found in /usr/local/lib
  libraries f77blas,cblas,atlas not found in /usr/lib/sse2
  libraries f77blas,cblas,atlas not found in /usr/lib
  libraries f77blas,cblas,atlas not found in /usr/lib/i386-linux-gnu/sse2
  libraries f77blas,cblas,atlas not found in /usr/lib/i386-linux-gnu
  NOT AVAILABLE

/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py:1423: UserWarning: 
    Atlas (http://math-atlas.sourceforge.net/) libraries not found.
    Directories to search for the libraries can be specified in the
    numpy/distutils/site.cfg file (section [atlas]) or by setting
    the ATLAS environment variable.
  warnings.warn(AtlasNotFoundError.__doc__)
blas_info:
  libraries blas not found in /usr/local/lib
  libraries blas not found in /usr/lib
  libraries blas not found in /usr/lib/i386-linux-gnu
  NOT AVAILABLE

/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py:1432: UserWarning: 
    Blas (http://www.netlib.org/blas/) libraries not found.
    Directories to search for the libraries can be specified in the
    numpy/distutils/site.cfg file (section [blas]) or by setting
    the BLAS environment variable.
  warnings.warn(BlasNotFoundError.__doc__)
blas_src_info:
  NOT AVAILABLE

/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py:1435: UserWarning: 
    Blas (http://www.netlib.org/blas/) sources not found.
    Directories to search for the sources can be specified in the
    numpy/distutils/site.cfg file (section [blas_src]) or by setting
    the BLAS_SRC environment variable.
  warnings.warn(BlasSrcNotFoundError.__doc__)
Traceback (most recent call last):
  File "setup.py", line 208, in <module>
    setup_package()
  File "setup.py", line 199, in setup_package
    configuration=configuration )
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/core.py", line 152, in setup
    config = configuration()
  File "setup.py", line 136, in configuration
    config.add_subpackage(''scipy'')
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 1002, in add_subpackage
    caller_level = 2)
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 971, in get_subpackage
    caller_level = caller_level + 1)
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 908, in _get_configuration_from_setup_py
    config = setup_module.configuration(*args)
  File "scipy/setup.py", line 8, in configuration
    config.add_subpackage(''integrate'')
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 1002, in add_subpackage
    caller_level = 2)
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 971, in get_subpackage
    caller_level = caller_level + 1)
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 908, in _get_configuration_from_setup_py
    config = setup_module.configuration(*args)
  File "scipy/integrate/setup.py", line 10, in configuration
    blas_opt = get_info(''blas_opt'',notfound_action=2)
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py", line 320, in get_info
    return cl().get_info(notfound_action)
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py", line 471, in get_info
    raise self.notfounderror(self.notfounderror.__doc__)
numpy.distutils.system_info.BlasNotFoundError: 
    Blas (http://www.netlib.org/blas/) libraries not found.
    Directories to search for the libraries can be specified in the
    numpy/distutils/site.cfg file (section [blas]) or by setting
    the BLAS environment variable.
Error in sys.excepthook:
Traceback (most recent call last):
  File "/usr/lib/python2.7/dist-packages/apport_python_hook.py", line 64, in apport_excepthook
    from apport.fileutils import likely_packaged, get_recent_crashes
  File "/usr/lib/python2.7/dist-packages/apport/__init__.py", line 1, in <module>
    from apport.report import Report
  File "/usr/lib/python2.7/dist-packages/apport/report.py", line 18, in <module>
    import problem_report
  File "/usr/lib/python2.7/dist-packages/problem_report.py", line 14, in <module>
    import zlib, base64, time, sys, gzip, struct, os
  File "/usr/lib/python2.7/gzip.py", line 10, in <module>
    import io
  File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/io/__init__.py", line 83, in <module>
    from matlab import loadmat, savemat, byteordercodes
  File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/io/matlab/__init__.py", line 11, in <module>
    from mio import loadmat, savemat
  File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/io/matlab/mio.py", line 15, in <module>
    from mio4 import MatFile4Reader, MatFile4Writer
  File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/io/matlab/mio4.py", line 9, in <module>
    import scipy.sparse
  File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/sparse/__init__.py", line 180, in <module>
    from csr import *
  File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/sparse/csr.py", line 12, in <module>
    from sparsetools import csr_tocsc, csr_tobsr, csr_count_blocks, /
  File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/sparse/sparsetools/__init__.py", line 4, in <module>
    from csr import *
  File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/sparse/sparsetools/csr.py", line 25, in <module>
    _csr = swig_import_helper()
  File "/home/michael/Downloads/scipy-0.11.0rc1/scipy/sparse/sparsetools/csr.py", line 17, in swig_import_helper
    import _csr
ImportError: No module named _csr

Original exception was:
Traceback (most recent call last):
  File "setup.py", line 208, in <module>
    setup_package()
  File "setup.py", line 199, in setup_package
    configuration=configuration )
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/core.py", line 152, in setup
    config = configuration()
  File "setup.py", line 136, in configuration
    config.add_subpackage(''scipy'')
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 1002, in add_subpackage
    caller_level = 2)
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 971, in get_subpackage
    caller_level = caller_level + 1)
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 908, in _get_configuration_from_setup_py
    config = setup_module.configuration(*args)
  File "scipy/setup.py", line 8, in configuration
    config.add_subpackage(''integrate'')
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 1002, in add_subpackage
    caller_level = 2)
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 971, in get_subpackage
    caller_level = caller_level + 1)
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/misc_util.py", line 908, in _get_configuration_from_setup_py
    config = setup_module.configuration(*args)
  File "scipy/integrate/setup.py", line 10, in configuration
    blas_opt = get_info(''blas_opt'',notfound_action=2)
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py", line 320, in get_info
    return cl().get_info(notfound_action)
  File "/usr/lib/python2.7/dist-packages/numpy/distutils/system_info.py", line 471, in get_info
    raise self.notfounderror(self.notfounderror.__doc__)
numpy.distutils.system_info.BlasNotFoundError: 
    Blas (http://www.netlib.org/blas/) libraries not found.
    Directories to search for the libraries can be specified in the
    numpy/distutils/site.cfg file (section [blas]) or by setting
    the BLAS environment variable.

Además, ¿cómo pruebo si este módulo se instaló correctamente?

Answer 1

Debe descargar e instalar Atlas como sugiere la salida. Después de eso, vuelva a intentar la instalación de SciPy.

Otra opción sería apt-get install versión anterior. Esto instalará automáticamente todas las dependencias; y luego instala el más nuevo a mano. Esto dará como resultado dos bibliotecas en su máquina, una en /usr/share/pyshared muy probablemente y otra en algún lugar bajo /usr/local , pero puede asegurarse de cuál se carga alterando la ruta de carga del módulo.

Además, si va a omitir --prefix=/usr/local , al instalar la versión más nueva sobre la anterior, se sobreescribirá y no se requerirá la creación de una ruta.

Answer 2

Mi flujo de trabajo habitual es usar virtualenv para tener una distribución de Python con paquetes actualizados.

Dentro de este entorno puede instalar y actualizar todos los paquetes que necesita con pip y sin ninguna llamada sudo .

Entonces, si solo necesitas SciPy (y NumPy ), esto sería:

$ sudo apt-get install python-virtualenv python-pip
$ sudo apt-get build-dep python-numpy python-scipy
$ # Create virtualenv in home
$ virtualenv .myenv
$ # Activate the virtualenv
$ source .myenv/bin/activate
(myenv)$ pip install -U numpy
(myenv)$ pip install -U scipy

(Si no tiene acceso de root, puede instalar virtualenv y pip como se describe here . Sin embargo, necesita las dependencias de NumPy y SciPy).

Puede incluir source .myenv/bin/activate en su .bash_profile y su shell siempre comenzará con ese entorno. Si usa archivos de requisitos , es fácil instalar y mantener los mismos entornos en todas sus máquinas.

Answer 3

Para Fedora 20:

pip install virtualenv virtualenvwrapper
mkvirtualenv scipy_project
sudo yum-buildep scipy
pip install scipy

¡Espero que ayude!

Answer 4

Tenía el mismo problema. Lo siguiente funcionó para mí:

sudo apt-get install libblas-dev
sudo apt-get install liblapack-dev
sudo apt-get install gfortran

Answer 5

Tuve el mismo problema que el OP (en Red Hat Linux 5.7 para mí; sí, sé que es viejo) y todo se solucionó instalando los encabezados ATLAS (y "libs estáticos", dice) a través de:

 yum install atlas-devel

Answer 6

PyPM es una buena forma de instalarlo. La versión es beta 0.10.1 e incluye todas las dependencias. Necesita Python Activo para acceder a PyPM, pero debería poder instalarlo fácilmente.

pypm install scipi

Answer 7

sudo apt-get install python-scipy